Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 8 of 207
Found at i:2779229 original size:4 final size:4
Alignment explanation
Indices: 2779222--2779263 Score: 66
Period size: 4 Copynumber: 10.0 Consensus size: 4
2779212 AAATTGAGCC
2779222 TTTA TTTA TTTA TTTA TTTCA TTTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTT-A -TTTA TTTA TTTA TTTA TTTA
2779264 CAAGCAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 31 0.86
5 2 0.06
6 3 0.08
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:2779249 original size:18 final size:17
Alignment explanation
Indices: 2779222--2779262 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
2779212 AAATTGAGCC
2779222 TTTA-TTTATTTATTTA
1 TTTATTTTATTTATTTA
2779238 TTTCATTTTATTTATTTA
1 TTT-ATTTTATTTATTTA
2779256 TTTATTT
1 TTTATTT
2779263 ACAAGCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.13
17 5 0.22
18 15 0.65
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTATTTATTTA
Found at i:2788900 original size:501 final size:502
Alignment explanation
Indices: 2787853--2788911 Score: 1888
Period size: 502 Copynumber: 2.1 Consensus size: 502
2787843 TAATCCTACA
* ** *
2787853 ATATTGATGCCCTAAATGAAGGTTAGAGCCCCCTTCACATCATAATTATTTCTATCCTTGGAAAG
1 ATATTGTTGCCCTAAATGAAGGTTAGAGCCCCCTTCACATGGTAATTATTTCTATCATTGGAAAG
* * *
2787918 TGACTGGTTATGCATTTTCCAATGCTGCTTGTCATTGTATTTGGTTTGCTCTAAATGAAGGTTAG
66 TGACTGATTATGCATTTGCCAATGCTGCTTGTCATTATATTTGGTTTGCTCTAAATGAAGGTTAG
* * * *
2787983 TGCTATCATAATTATTCCTATCCTTGTAAATTGACTTATTTTTCATTTGCGCGTACTGCTTGTCT
131 TGCCATCATAATTATTCCTATCCTTGTAAATTGACTGATTTTTCATTTGCGCGTAATGCTTGTCA
* *
2788048 TTGCGTTTTGTTTGCTCTTGTTGTCACTAAGAAGCTGATAATGAGCCTTGAACATCCTGTATATA
196 TTGCATTTTGTTTGCTCTTGTTGTCACTAAGAAGCTGATAATGAGCCTTGAACATCCTGTATAAA
*
2788113 ACTTGAGTAATGCTAAGGTACAAAGAAGTCTGAGTGGTTGTGTGAAAATGTCTTCCTTTTTCCAA
261 ACTTGAGTAATGCTAAGGTACAAAGAAGTCTGAGTCGTTGTGTGAAAATGTCTTCCTTTTTCCAA
*
2788178 GATGAATGAGTGGACTCAGTTTTGTTAGGACTATATGTCGTGCTCTTCTTGTTGTTTTGAATGGG
326 GATGAATGAGTGGACTCAGTTTTGTCAGGACTATATGTCGTGCTCTTCTTGTTGTTTTGAATGGG
2788243 TACGAGGCTCCTAGCACCTTTAGGGAACTAGAACTGAAGTTCGTTAGCTTTGGGCAGAGAATTTT
391 TACGAGGCTCCTAGCACCTTTAGGGAACTAGAACTGAAGTTCGTTAGCTTTGGGCAGAGAATTTT
2788308 AACCAAAGGCTTGCTATACCCCAAATAGTTGCTTCTATTTTGATGAT
456 AACCAAAGGCTTGCTATACCCCAAATAGTTGCTTCTATTTTGATGAT
2788355 ATATTGTTGCCCTAAATGAAGGTTAGAGCCCCCTTCACATGGTAATTATTTCTATCATTGGAAAG
1 ATATTGTTGCCCTAAATGAAGGTTAGAGCCCCCTTCACATGGTAATTATTTCTATCATTGGAAAG
* *
2788420 TGACTGATTATGCATTTGCCAATGCTGCTTGTCATTATATTTGGTTTGCTCTAAATGAATGTTGG
66 TGACTGATTATGCATTTGCCAATGCTGCTTGTCATTATATTTGGTTTGCTCTAAATGAAGGTTAG
2788485 TGCCATCATAATTATTCCTATCCTTGTAAATTGACTGATTTTTCATTTGC-CAGTAATGCTTGTC
131 TGCCATCATAATTATTCCTATCCTTGTAAATTGACTGATTTTTCATTTGCGC-GTAATGCTTGTC
*
2788549 ATTGCATTTTGTTTGCTCTTGTTGTCACTAAGAAGCTGATAATGAGCCTTGAACTTCCTGTATAA
195 ATTGCATTTTGTTTGCTCTTGTTGTCACTAAGAAGCTGATAATGAGCCTTGAACATCCTGTATAA
*
2788614 AACTTGAGTAATGCTAAGGTACAAAGAAGTC-GAGTCGTTGTGTGAAAATGTGTTCCTTTTTCCA
260 AACTTGAGTAATGCTAAGGTACAAAGAAGTCTGAGTCGTTGTGTGAAAATGTCTTCCTTTTTCCA
*
2788678 AGATGAATGAGTGGACTCAGTTTTGTCAGGACTATGTGTCGTGCTCTTCTTGTTGTTTTGAATGG
325 AGATGAATGAGTGGACTCAGTTTTGTCAGGACTATATGTCGTGCTCTTCTTGTTGTTTTGAATGG
* *
2788743 GTACGAGGCTCCTAGCACCTTTAGGGAACTGGAGCTGAAGTTCGTTAGCTTTGGGCAGAGAATTT
390 GTACGAGGCTCCTAGCACCTTTAGGGAACTAGAACTGAAGTTCGTTAGCTTTGGGCAGAGAATTT
2788808 TAACCAAAGGCTTGCTATACCCCAAATAGTTGCTTCTATTTTGATGAT
455 TAACCAAAGGCTTGCTATACCCCAAATAGTTGCTTCTATTTTGATGAT
*
2788856 ATATTGTTGCCCTAAATGAAGGTTAGAGCCCCCTTCATATGGTAATTATTTCTATC
1 ATATTGTTGCCCTAAATGAAGGTTAGAGCCCCCTTCACATGGTAATTATTTCTATC
2788912 CTTGAACTTC
Statistics
Matches: 533, Mismatches: 23, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
501 261 0.49
502 272 0.51
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (502 bp):
ATATTGTTGCCCTAAATGAAGGTTAGAGCCCCCTTCACATGGTAATTATTTCTATCATTGGAAAG
TGACTGATTATGCATTTGCCAATGCTGCTTGTCATTATATTTGGTTTGCTCTAAATGAAGGTTAG
TGCCATCATAATTATTCCTATCCTTGTAAATTGACTGATTTTTCATTTGCGCGTAATGCTTGTCA
TTGCATTTTGTTTGCTCTTGTTGTCACTAAGAAGCTGATAATGAGCCTTGAACATCCTGTATAAA
ACTTGAGTAATGCTAAGGTACAAAGAAGTCTGAGTCGTTGTGTGAAAATGTCTTCCTTTTTCCAA
GATGAATGAGTGGACTCAGTTTTGTCAGGACTATATGTCGTGCTCTTCTTGTTGTTTTGAATGGG
TACGAGGCTCCTAGCACCTTTAGGGAACTAGAACTGAAGTTCGTTAGCTTTGGGCAGAGAATTTT
AACCAAAGGCTTGCTATACCCCAAATAGTTGCTTCTATTTTGATGAT
Found at i:2789339 original size:96 final size:96
Alignment explanation
Indices: 2789170--2789343 Score: 240
Period size: 96 Copynumber: 1.8 Consensus size: 96
2789160 CCCGTTCACA
* * * *
2789170 TCATAATTATTTCTATCCTTGGAAAGTGACTGATTAAGCATTTGCCAATGCTGCTTGTCATTATA
1 TCATAATTAATCCTATCCTTGGAAAGTGACTGATTAAGCATTTGCCAATACTGCTTGTCATTACA
2789235 TTTGGTTTGCTCTGAATGAAGGTTGGTGCCC
66 TTTGGTTTGCTCTGAATGAAGGTTGGTGCCC
* * *** * *
2789266 TCATAATTAATCCTATCCTTGTAAATTGACTGATTTTTCATTTGCCAGTACTGCTTGTCATTGCA
1 TCATAATTAATCCTATCCTTGGAAAGTGACTGATTAAGCATTTGCCAATACTGCTTGTCATTACA
*
2789331 TTTTGTTTGCTCT
66 TTTGGTTTGCTCT
2789344 TGTTGTCAGT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 66 1.00
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (96 bp):
TCATAATTAATCCTATCCTTGGAAAGTGACTGATTAAGCATTTGCCAATACTGCTTGTCATTACA
TTTGGTTTGCTCTGAATGAAGGTTGGTGCCC
Found at i:2791846 original size:28 final size:28
Alignment explanation
Indices: 2791785--2791883 Score: 155
Period size: 28 Copynumber: 3.5 Consensus size: 28
2791775 AAAAATAAAA
* *
2791785 ATTTACTAAAACATTACAACTTTTTTTTT
1 ATTTACCAAAATATTACAAC-TTTTTTTT
2791814 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
2791842 ATTTACCAAAATATATA-AACTTTTTTTT
1 ATTTACCAAAATAT-TACAACTTTTTTTT
2791870 ATTTACCAAAATAT
1 ATTTACCAAAATAT
2791884 ATAAAAAAAC
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
28 47 0.70
29 20 0.30
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTTACCAAAATATTACAACTTTTTTTT
Found at i:2791959 original size:27 final size:27
Alignment explanation
Indices: 2791921--2792004 Score: 161
Period size: 27 Copynumber: 3.1 Consensus size: 27
2791911 CCTGATCACC
2791921 CCAATGCCATTGGCGGCACCAATGGTG
1 CCAATGCCATTGGCGGCACCAATGGTG
2791948 CCAATGCCATTGGCGGCACCAATGGTG
1 CCAATGCCATTGGCGGCACCAATGGTG
2791975 CCAATGCCATTGGCGGCACCAAT-GTG
1 CCAATGCCATTGGCGGCACCAATGGTG
2792001 CCAA
1 CCAA
2792005 AGGACTAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 7 0.12
27 50 0.88
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (27 bp):
CCAATGCCATTGGCGGCACCAATGGTG
Found at i:2792546 original size:18 final size:19
Alignment explanation
Indices: 2792495--2792555 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
2792485 CTGATATTTC
*
2792495 TATTAATTTAAAATA-TAGT
1 TATTAAATTAAAATAGTA-T
* *
2792514 TATTAAATGAGAATAGT-T
1 TATTAAATTAAAATAGTAT
*
2792532 TATTAAATTAAAATAGAAT
1 TATTAAATTAAAATAGTAT
2792551 TATTA
1 TATTA
2792556 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 15 0.44
19 18 0.53
20 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (19 bp):
TATTAAATTAAAATAGTAT
Found at i:2793092 original size:27 final size:26
Alignment explanation
Indices: 2793054--2793110 Score: 96
Period size: 27 Copynumber: 2.2 Consensus size: 26
2793044 TTTTAATCCT
2793054 TTGGCACATTGGTGCCGCCAATGGCA
1 TTGGCACATTGGTGCCGCCAATGGCA
*
2793080 TTGGCACCTTTGGTGCCGCCAATGGCA
1 TTGGCA-CATTGGTGCCGCCAATGGCA
2793107 TTGG
1 TTGG
2793111 GGTGATCAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.16, C:0.26, G:0.32, T:0.26
Consensus pattern (26 bp):
TTGGCACATTGGTGCCGCCAATGGCA
Found at i:2793226 original size:27 final size:28
Alignment explanation
Indices: 2793152--2793249 Score: 164
Period size: 27 Copynumber: 3.5 Consensus size: 28
2793142 TTTTTTTTAT
2793152 ATATTTTGGTAAATAAAAAAAAGTT-TA
1 ATATTTTGGTAAATAAAAAAAAGTTGTA
2793179 TATATTTTGGTAAATAAAAAAAAAGTTGTA
1 -ATATTTTGGTAAAT-AAAAAAAAGTTGTA
2793209 ATATTTTGGTAAAT-AAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAGTTGTA
2793236 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
2793250 TTTTATTTTT
Statistics
Matches: 68, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
27 27 0.40
28 14 0.21
29 25 0.37
30 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTGTA
Found at i:2793268 original size:57 final size:57
Alignment explanation
Indices: 2793142--2793278 Score: 136
Period size: 57 Copynumber: 2.4 Consensus size: 57
2793132 TTTTTTTGTT
2793142 TTTTTTTTAT-ATATTTTGGTAAATAAAAAAAAGTTTATATATTTTGGTAAATAAAA
1 TTTTTTTTATAATATTTTGGTAAATAAAAAAAAGTTTATATATTTTGGTAAATAAAA
****** * ***
2793198 AAAAAGTTGTAATATTTTGGTAAAT-AAAAAAAGTTGTA-ATATTTTGGTAAATTTTTA
1 TTTTTTTTATAATATTTTGGTAAATAAAAAAAAGTT-TATATATTTTGGTAAA-TAAAA
*
2793255 TTTTTTTTATAATATTTTTGTAAA
1 TTTTTTTTATAATATTTTGGTAAA
2793279 AAACCCAGCT
Statistics
Matches: 60, Mismatches: 18, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
56 26 0.43
57 34 0.57
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (57 bp):
TTTTTTTTATAATATTTTGGTAAATAAAAAAAAGTTTATATATTTTGGTAAATAAAA
Found at i:2810476 original size:17 final size:17
Alignment explanation
Indices: 2810454--2810492 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
2810444 ATTACAATCA
*
2810454 ATTAAATCTTTTGACCG
1 ATTAAACCTTTTGACCG
2810471 ATTAAACCTTTTGACCG
1 ATTAAACCTTTTGACCG
2810488 -TTAAA
1 ATTAAA
2810493 GTAAACAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.38
Consensus pattern (17 bp):
ATTAAACCTTTTGACCG
Found at i:2811131 original size:20 final size:19
Alignment explanation
Indices: 2811087--2811131 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
2811077 TTTTACTTTT
* *
2811087 AAAAAATATATAATATGAA
1 AAAAAATAAATAAAATGAA
2811106 ATAAAAATAAATTAAAATGAA
1 A-AAAAATAAA-TAAAATGAA
2811127 AAAAA
1 AAAAA
2811132 GAAAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 12 0.55
21 9 0.41
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (19 bp):
AAAAAATAAATAAAATGAA
Found at i:2811963 original size:21 final size:22
Alignment explanation
Indices: 2811934--2811986 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
2811924 AAACTTTAAC
*
2811934 TTAATTTTAAAATG-AAAATAT
1 TTAAATTTAAAATGTAAAATAT
*
2811955 TTAAATTT-AACTGTAAAATAT
1 TTAAATTTAAAATGTAAAATAT
*
2811976 ATAAATATTAA
1 TTAAAT-TTAA
2811987 TATAATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.15
21 19 0.73
22 2 0.08
23 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (22 bp):
TTAAATTTAAAATGTAAAATAT
Found at i:2818764 original size:96 final size:96
Alignment explanation
Indices: 2818595--2818768 Score: 233
Period size: 96 Copynumber: 1.8 Consensus size: 96
2818585 CCCGTTCACA
* * * *
2818595 TCATAATTATTTCTATCCTTGGAAAGTGACTGTTTAAGCATTTGCCAATGCTGCTTGTCATTATA
1 TCATAATTAATCCTATCCTTGGAAAGTGACTGTTTAAGCATTTGCCAATACTGCTTGTCATTACA
2818660 TTTGGTTTGCTCTGAATGAAGGTTGGTGCCC
66 TTTGGTTTGCTCTGAATGAAGGTTGGTGCCC
* * ** * *
2818691 TCATAATTAATCCTATCCTTGTAAATTGACTGATTT-TTCATTTGCCAGTACTGCTTGTCATTGC
1 TCATAATTAATCCTATCCTTGGAAAGTGACTG-TTTAAGCATTTGCCAATACTGCTTGTCATTAC
*
2818755 ATTTTGTTTGCTCT
65 ATTTGGTTTGCTCT
2818769 TGTTGTCAGT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
96 63 0.95
97 3 0.05
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (96 bp):
TCATAATTAATCCTATCCTTGGAAAGTGACTGTTTAAGCATTTGCCAATACTGCTTGTCATTACA
TTTGGTTTGCTCTGAATGAAGGTTGGTGCCC
Found at i:2820906 original size:3 final size:3
Alignment explanation
Indices: 2820898--2820937 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
2820888 TTTTACTATC
2820898 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2820938 CTACTTATTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2821047 original size:26 final size:24
Alignment explanation
Indices: 2821018--2821076 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
2821008 CTACTTTTTT
2821018 ATATATAC-TTTATAATTTATATATAC
1 ATATATACATTT-TAA-TT-TATATAC
* *
2821044 ATATACACATTTTAATTTATGTAC
1 ATATATACATTTTAATTTATATAC
2821068 ATATATACA
1 ATATATACA
2821077 CATATTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 14 0.48
25 2 0.07
26 10 0.34
27 3 0.10
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.46
Consensus pattern (24 bp):
ATATATACATTTTAATTTATATAC
Found at i:2821077 original size:26 final size:27
Alignment explanation
Indices: 2821017--2821079 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
2821007 CCTACTTTTT
* *
2821017 TATATATAC-TTTATAATTTATATATA
1 TATATACACATTTATAATTTATATACA
* *
2821043 CATATACACATTT-TAATTTATGTACA
1 TATATACACATTTATAATTTATATACA
2821069 TATATACACAT
1 TATATACACAT
2821080 ATTTTCATAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 28 0.90
27 3 0.10
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (27 bp):
TATATACACATTTATAATTTATATACA
Found at i:2821172 original size:18 final size:18
Alignment explanation
Indices: 2821142--2821188 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
2821132 CTTAAAATCC
* *
2821142 ATATTTT-TCTTATGTAT
1 ATATTTTATATTATATAT
2821159 ATATTTTATATTATATAT
1 ATATTTTATATTATATAT
2821177 ATATTTTTATAT
1 ATA-TTTTATAT
2821189 ATTCTACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 7 0.27
18 11 0.42
19 8 0.31
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
ATATTTTATATTATATAT
Found at i:2823234 original size:37 final size:37
Alignment explanation
Indices: 2823193--2823266 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
2823183 AATTAGAGAA
2823193 CGTTCATGATTGAAACCTTCCTTTAATTATCTCTGTG
1 CGTTCATGATTGAAACCTTCCTTTAATTATCTCTGTG
2823230 CGTTCATGATTGAAACCTTCCTTTAATTATCTCTGTG
1 CGTTCATGATTGAAACCTTCCTTTAATTATCTCTGTG
2823267 TCGACTTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.43
Consensus pattern (37 bp):
CGTTCATGATTGAAACCTTCCTTTAATTATCTCTGTG
Found at i:2823618 original size:59 final size:59
Alignment explanation
Indices: 2823526--2823642 Score: 234
Period size: 59 Copynumber: 2.0 Consensus size: 59
2823516 AAGAATGCCG
2823526 AATTCAAATTTAGAACAAAGTAAACCTTCAAATCACTTGTGCTCGGTTTCATAAGAGTC
1 AATTCAAATTTAGAACAAAGTAAACCTTCAAATCACTTGTGCTCGGTTTCATAAGAGTC
2823585 AATTCAAATTTAGAACAAAGTAAACCTTCAAATCACTTGTGCTCGGTTTCATAAGAGT
1 AATTCAAATTTAGAACAAAGTAAACCTTCAAATCACTTGTGCTCGGTTTCATAAGAGT
2823643 TTAACTAAGC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.31
Consensus pattern (59 bp):
AATTCAAATTTAGAACAAAGTAAACCTTCAAATCACTTGTGCTCGGTTTCATAAGAGTC
Found at i:2833461 original size:28 final size:28
Alignment explanation
Indices: 2833421--2833475 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
2833411 ACCCGAATAG
2833421 GTACTCTATTTTTCTTGTTTGCTTTTGT
1 GTACTCTATTTTTCTTGTTTGCTTTTGT
2833449 GTACTCTATTTTTCTTGTTTGCTTTTG
1 GTACTCTATTTTTCTTGTTTGCTTTTG
2833476 CTTTGTACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.07, C:0.15, G:0.15, T:0.64
Consensus pattern (28 bp):
GTACTCTATTTTTCTTGTTTGCTTTTGT
Found at i:2834776 original size:11 final size:13
Alignment explanation
Indices: 2834760--2834793 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
2834750 AATTTCACAG
2834760 AAAAATTTTG-T-
1 AAAAATTTTGTTC
2834771 AAAAATTTTGTTC
1 AAAAATTTTGTTC
2834784 AAAAATTTTG
1 AAAAATTTTG
2834794 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 1 0.05
13 10 0.48
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (13 bp):
AAAAATTTTGTTC
Found at i:2835978 original size:26 final size:26
Alignment explanation
Indices: 2835934--2835985 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
2835924 GACTATAAAG
* *
2835934 GGGGTTGCTATGTGCTGATTCCCCAA
1 GGGGTTACTAAGTGCTGATTCCCCAA
*
2835960 GGGGTTACTAAGTGTTGATTCCCCAA
1 GGGGTTACTAAGTGCTGATTCCCCAA
2835986 ATCATTGGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (26 bp):
GGGGTTACTAAGTGCTGATTCCCCAA
Found at i:2835992 original size:102 final size:102
Alignment explanation
Indices: 2835858--2836059 Score: 316
Period size: 102 Copynumber: 2.0 Consensus size: 102
2835848 GAATATAAAG
* * * *
2835858 GGGGTTGCTAAGTGATGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
1 GGGGTTACTAAGTGATGATTCCCCAAATCATTGGTGGTTGCGAAGTGCTGATTCCACCGTATCTT
* *
2835923 TGACTAT-AAAGGGGGTTGCTATGTGCTGATTCCCCAA
66 TGAATATGAAA-GGGGTTGCTAAGTGCTGATTCCCCAA
*
2835960 GGGGTTACTAAGTGTTGATTCCCCAAATCATTGGTGGTTGCGAAGTGCTGATTCCACCGTATCTT
1 GGGGTTACTAAGTGATGATTCCCCAAATCATTGGTGGTTGCGAAGTGCTGATTCCACCGTATCTT
*
2836025 TGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 TGAATATGAAAGGGGTTGCTAAGTGCTGATTCCCC
2836060 GAATTACTGG
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
102 88 0.97
103 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (102 bp):
GGGGTTACTAAGTGATGATTCCCCAAATCATTGGTGGTTGCGAAGTGCTGATTCCACCGTATCTT
TGAATATGAAAGGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:2839161 original size:19 final size:18
Alignment explanation
Indices: 2839119--2839173 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
2839109 AAACAAAAAC
*
2839119 AAAAA-AAAATGAAAAATG
1 AAAAAGAAAA-GAAAAAGG
*
2839137 -AAAAGAAGAGAAAAGAGG
1 AAAAAGAAAAGAAAA-AGG
2839155 AAAAAGAAAAGAAAAAGG
1 AAAAAGAAAAGAAAAAGG
2839173 A
1 A
2839174 GAGGCCAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 9 0.29
18 9 0.29
19 13 0.42
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.04
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAAGG
Found at i:2839521 original size:45 final size:44
Alignment explanation
Indices: 2839445--2839533 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 44
2839435 TTCCATTTTA
* *
2839445 TTCATTTTTATTTTGGCAAAATATGCCATCTTGATTAATTTATT
1 TTCATTTTTATCTTAGCAAAATATGCCATCTTGATTAATTTATT
* *
2839489 TTCATTTTGTATCTTAGCAAAATTTGCTATCTTGATTAATTTATT
1 TTCATTTT-TATCTTAGCAAAATATGCCATCTTGATTAATTTATT
2839534 CATTTCGAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 8 0.20
45 32 0.80
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.53
Consensus pattern (44 bp):
TTCATTTTTATCTTAGCAAAATATGCCATCTTGATTAATTTATT
Found at i:2839690 original size:109 final size:109
Alignment explanation
Indices: 2839497--2839698 Score: 314
Period size: 109 Copynumber: 1.9 Consensus size: 109
2839487 TTTTCATTTT
* * *
2839497 GTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGCTCTCAATAAAATT
1 GTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAACCTTACTCTCAATAAAATT
* * *
2839562 CTATCTTATTCATTGTGATAATCTTTTTTCGTCTTATTCAGTTC
66 CCATCTTATCCATTGTGATAATATTTTTTCGTCTTATTCAGTTC
* *
2839606 GTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAACCTTATTCTCAATAAAATT
1 GTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAACCTTACTCTCAATAAAATT
* *
2839671 CCATCTTGTCCATTTTGATAATATTTTT
66 CCATCTTATCCATTGTGATAATATTTTT
2839699 CAAGCATTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
109 83 1.00
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.49
Consensus pattern (109 bp):
GTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAACCTTACTCTCAATAAAATT
CCATCTTATCCATTGTGATAATATTTTTTCGTCTTATTCAGTTC
Found at i:2840394 original size:16 final size:16
Alignment explanation
Indices: 2840368--2840404 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
2840358 TGACATTCAG
2840368 CATTC-ATGCAAATAT
1 CATTCAATGCAAATAT
2840383 CATTCAATGCAAATAT
1 CATTCAATGCAAATAT
2840399 CATTCA
1 CATTCA
2840405 TACACGTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (16 bp):
CATTCAATGCAAATAT
Found at i:2841167 original size:4 final size:4
Alignment explanation
Indices: 2841158--2841187 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
2841148 TTATGTAATT
2841158 CATA CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CA
2841188 GACAGAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:2845163 original size:14 final size:14
Alignment explanation
Indices: 2845146--2845177 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
2845136 GAGCTTTAGG
2845146 AATGGAAACACTGA
1 AATGGAAACACTGA
2845160 AATGGAAACACTGA
1 AATGGAAACACTGA
2845174 AATG
1 AATG
2845178 ACTCCAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.22, T:0.16
Consensus pattern (14 bp):
AATGGAAACACTGA
Found at i:2849726 original size:60 final size:60
Alignment explanation
Indices: 2849662--2849785 Score: 162
Period size: 60 Copynumber: 2.1 Consensus size: 60
2849652 CAAGCATGTG
* * * *
2849662 TATATAAAAATTAAAAATATGTATA-AAAGATATATATAT-ATATAAGATTTATTAAATATA
1 TATATAAAAATAAAAAATATGTATATAAAGATATATAAATAATATAAG--GTATAAAATATA
* *
2849722 TATATGAAAATAAAAAATGTGTATATAAAGATATATAAATAATATAAGGTATAAAATATA
1 TATATAAAAATAAAAAATATGTATATAAAGATATATAAATAATATAAGGTATAAAATATA
2849782 TATA
1 TATA
2849786 CCTCTTTTCA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
60 36 0.64
61 13 0.23
62 7 0.12
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (60 bp):
TATATAAAAATAAAAAATATGTATATAAAGATATATAAATAATATAAGGTATAAAATATA
Found at i:2849784 original size:18 final size:19
Alignment explanation
Indices: 2849676--2849785 Score: 62
Period size: 19 Copynumber: 5.6 Consensus size: 19
2849666 TAAAAATTAA
* * *
2849676 AAATATGTATAAAAGATAT
1 AAATATATATAAGATATAT
* *
2849695 ATATATATATAAGATTTATT
1 AAATATATATAAGATATA-T
* * *
2849715 AAATATATATATGAAAATAAA
1 AAATATATATAAG-ATAT-AT
*
2849736 AAATGTGTATATAAAGATATAT
1 AAA--TATATAT-AAGATATAT
*
2849758 AAATA-ATATAAGGTATA-
1 AAATATATATAAGATATAT
2849775 AAATATATATA
1 AAATATATATA
2849786 CCTCTTTTCA
Statistics
Matches: 68, Mismatches: 16, Indels: 15
0.69 0.16 0.15
Matches are distributed among these distances:
17 5 0.07
18 12 0.18
19 17 0.25
20 13 0.19
21 5 0.07
22 5 0.07
23 9 0.13
24 2 0.03
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.35
Consensus pattern (19 bp):
AAATATATATAAGATATAT
Found at i:2853390 original size:6 final size:7
Alignment explanation
Indices: 2853365--2853389 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2853355 ATAATAAATA
2853365 TTTTTAT
1 TTTTTAT
2853372 TTTTTAT
1 TTTTTAT
2853379 TTTTTAT
1 TTTTTAT
2853386 TTTT
1 TTTT
2853390 AAAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:2853669 original size:30 final size:31
Alignment explanation
Indices: 2853610--2853673 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
2853600 ATTTTACTAA
2853610 ATTCAAATTAATTACGTCATTTTTAAATTAT
1 ATTCAAATTAATTACGTCATTTTTAAATTAT
*
2853641 ATTCAAATTAATTACGT-ATTTTTTAATTAT
1 ATTCAAATTAATTACGTCATTTTTAAATTAT
2853671 ATT
1 ATT
2853674 GCCCCCAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 15 0.47
31 17 0.53
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.52
Consensus pattern (31 bp):
ATTCAAATTAATTACGTCATTTTTAAATTAT
Found at i:2858125 original size:18 final size:19
Alignment explanation
Indices: 2858088--2858125 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
2858078 ATATTCACTA
*
2858088 AAAAAAATATTATTCCAAC
1 AAAAAAATATTATTCAAAC
*
2858107 AAAAAAAT-TTATTTAAAC
1 AAAAAAATATTATTCAAAC
2858125 A
1 A
2858126 TGGTAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAAAATATTATTCAAAC
Found at i:2859990 original size:50 final size:50
Alignment explanation
Indices: 2859915--2860015 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
2859905 GTCTGGAACA
2859915 GGACTGAAATCCGGTAACTCTGAATAATTTGATCGCTTGGCAAAGAAGGC
1 GGACTGAAATCCGGTAACTCTGAATAATTTGATCGCTTGGCAAAGAAGGC
* *
2859965 GGACTGAAATCGGGTAACTCTGAATAATTTGATCGCTTGGCAACGAAGGC
1 GGACTGAAATCCGGTAACTCTGAATAATTTGATCGCTTGGCAAAGAAGGC
2860015 G
1 G
2860016 CTGTTGCTAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (50 bp):
GGACTGAAATCCGGTAACTCTGAATAATTTGATCGCTTGGCAAAGAAGGC
Found at i:2865129 original size:96 final size:96
Alignment explanation
Indices: 2864958--2865133 Score: 244
Period size: 96 Copynumber: 1.8 Consensus size: 96
2864948 CCCCCCTTCA
* * **
2864958 CATCATAATTATTTCTATCCTTGGAAAGTGACTGGTTATGCATTTGCCAATGCTGCTTGTCATTA
1 CATCATAATTATTCCTATCCTTGGAAAGTGACTGATTATGCATTTGCCAATAATGCTTGTCATTA
*
2865023 TATTTGGTTTGCTCTAAATGAATGTTGGTGC
66 CATTTGGTTTGCTCTAAATGAATGTTGGTGC
* * * * * *
2865054 CATCATAATTATTCCTATCCTTGTAAATTGACTGATTTTTCATTTGCCAGTAATGCTTGTCATTG
1 CATCATAATTATTCCTATCCTTGGAAAGTGACTGATTATGCATTTGCCAATAATGCTTGTCATTA
*
2865119 CATTTTGTTTGCTCT
66 CATTTGGTTTGCTCT
2865134 TGTTGTCACT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 68 1.00
ACGTcount: A:0.22, C:0.17, G:0.16, T:0.44
Consensus pattern (96 bp):
CATCATAATTATTCCTATCCTTGGAAAGTGACTGATTATGCATTTGCCAATAATGCTTGTCATTA
CATTTGGTTTGCTCTAAATGAATGTTGGTGC
Found at i:2867957 original size:18 final size:19
Alignment explanation
Indices: 2867906--2867966 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
2867896 CTGATATTTC
*
2867906 TATTAATTTAAAATA-TAGT
1 TATTAAATTAAAATAGTA-T
* *
2867925 TATTAAATGAGAATAGT-T
1 TATTAAATTAAAATAGTAT
*
2867943 TATTAAATTAAAATAGAAT
1 TATTAAATTAAAATAGTAT
2867962 TATTA
1 TATTA
2867967 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 15 0.44
19 18 0.53
20 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (19 bp):
TATTAAATTAAAATAGTAT
Found at i:2868503 original size:27 final size:26
Alignment explanation
Indices: 2868465--2868521 Score: 96
Period size: 27 Copynumber: 2.2 Consensus size: 26
2868455 TTTTAATCCT
2868465 TTGGCACATTGGTGCCGCCAATGGCA
1 TTGGCACATTGGTGCCGCCAATGGCA
*
2868491 TTGGCACCTTTGGTGCCGCCAATGGCA
1 TTGGCA-CATTGGTGCCGCCAATGGCA
2868518 TTGG
1 TTGG
2868522 GGTGATCAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.16, C:0.26, G:0.32, T:0.26
Consensus pattern (26 bp):
TTGGCACATTGGTGCCGCCAATGGCA
Found at i:2868638 original size:28 final size:29
Alignment explanation
Indices: 2868563--2868662 Score: 177
Period size: 29 Copynumber: 3.5 Consensus size: 29
2868553 TTTTTTTTAT
2868563 ATATTTTGGTAAATAAAAAAAAAGTT-TA
1 ATATTTTGGTAAATAAAAAAAAAGTTGTA
2868591 TATATTTTGGTAAATAAAAAAAAAGTTGTA
1 -ATATTTTGGTAAATAAAAAAAAAGTTGTA
2868621 ATATTTTGGTAAAT-AAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAAGTTGTA
2868649 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
2868663 TTTTATTTTT
Statistics
Matches: 70, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
28 28 0.40
29 40 0.57
30 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (29 bp):
ATATTTTGGTAAATAAAAAAAAAGTTGTA
Found at i:2874020 original size:4 final size:4
Alignment explanation
Indices: 2874011--2874035 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2874001 GGTCCTTGTA
2874011 ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC A
2874036 GAGAGCAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:2876796 original size:21 final size:21
Alignment explanation
Indices: 2876768--2876815 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
2876758 TTAATTTTAA
*
2876768 AATA-AAAATATTTAAAT-TT
1 AATATAAAATATATAAATATT
2876787 AACTATAAAATATATAAATATT
1 AA-TATAAAATATATAAATATT
2876809 AATATAA
1 AATATAA
2876816 TTTTTTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 2 0.08
21 17 0.68
22 4 0.16
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AATATAAAATATATAAATATT
Found at i:2879738 original size:59 final size:57
Alignment explanation
Indices: 2879621--2879741 Score: 147
Period size: 58 Copynumber: 2.1 Consensus size: 57
2879611 CAAGCATGTG
* *
2879621 TATATAAAAATTAAAAATATGTATAAAAGATATATATATATAAGATTTATTAAATATA
1 TATATAAAAATAAAAAATATGTATAAAAGATATATATATATAAGA-GTATTAAATATA
* *
2879679 TATATGAAAATAAAAAATGTGTATATAAAGATATATAAATAATATAAG-GTA-TAAATATA
1 TATATAAAAATAAAAAATATGTATA-AAAGATATAT--AT-ATATAAGAGTATTAAATATA
2879738 TATA
1 TATA
2879742 ATATATATTA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
58 22 0.40
59 22 0.40
60 2 0.04
61 2 0.04
62 7 0.13
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (57 bp):
TATATAAAAATAAAAAATATGTATAAAAGATATATATATATAAGAGTATTAAATATA
Found at i:2879961 original size:30 final size:28
Alignment explanation
Indices: 2879887--2879961 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 28
2879877 ATAATTATAA
2879887 ATAAAA-ATGCATGTATATATATAGATT
1 ATAAAATATGCATGTATATATATAGATT
* *
2879914 ATAAAATATAGGTATGTATATATATATATGTT
1 ATAAAATAT--GCATGTATATATATAGA--TT
*
2879946 TTAAAATATGCATGTA
1 ATAAAATATGCATGTA
2879962 AAAAAAACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 6 0.15
28 2 0.05
30 21 0.54
32 10 0.26
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (28 bp):
ATAAAATATGCATGTATATATATAGATT
Found at i:2882236 original size:6 final size:6
Alignment explanation
Indices: 2882220--2882279 Score: 93
Period size: 6 Copynumber: 9.7 Consensus size: 6
2882210 GCCCCTCCAT
*
2882220 TTTTCA TTTTTCA TTTTCA TTTTTCA TTTTCA TTTTCA TTTTCA TTTTTA
1 TTTTCA -TTTTCA TTTTCA -TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
2882270 TTTTCA TTTT
1 TTTTCA TTTT
2882280 TTTTGACTCA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
6 38 0.76
7 12 0.24
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTCA
Found at i:2882281 original size:13 final size:13
Alignment explanation
Indices: 2882220--2882280 Score: 108
Period size: 12 Copynumber: 4.8 Consensus size: 13
2882210 GCCCCTCCAT
2882220 TTTTCATTTTTCA
1 TTTTCATTTTTCA
2882233 TTTTCATTTTTCA
1 TTTTCATTTTTCA
2882246 TTTTCA-TTTTCA
1 TTTTCATTTTTCA
2882258 TTTTCATTTTT-A
1 TTTTCATTTTTCA
2882270 TTTTCATTTTT
1 TTTTCATTTTT
2882281 TTTGACTCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
12 24 0.51
13 23 0.49
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:2883123 original size:5 final size:6
Alignment explanation
Indices: 2883087--2883136 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
2883077 CTCATTTTTC
* **
2883087 TTCTTT TTCTTT TAT-TTT TTATTT TAATTT TTCTTT TTCTTT TTCTTT
1 TTCTTT TTCTTT T-TCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT
2883135 TT
1 TT
2883137 TTCTGCTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
5 1 0.03
6 37 0.95
7 1 0.03
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (6 bp):
TTCTTT
Found at i:2888247 original size:58 final size:57
Alignment explanation
Indices: 2888130--2888251 Score: 147
Period size: 58 Copynumber: 2.1 Consensus size: 57
2888120 CAAGCATGTG
* *
2888130 TATATAAAAATTAAAAATATGTATAAAAGATATATATATATAAGATTTATTAAATATA
1 TATATAAAAATAAAAAATATGTATAAAAGATATATATATATAAGA-GTATTAAATATA
* * *
2888188 TATATGAAAATAAAAAATGTGTATATAAAGATATATAAATAATATAAG-GTATAAAATATA
1 TATATAAAAATAAAAAATATGTATA-AAAGATATAT--AT-ATATAAGAGTATTAAATATA
2888248 TATA
1 TATA
2888252 ATATATATTA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
58 22 0.40
59 10 0.18
60 14 0.25
61 2 0.04
62 7 0.13
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (57 bp):
TATATAAAAATAAAAAATATGTATAAAAGATATATATATATAAGAGTATTAAATATA
Found at i:2888250 original size:18 final size:19
Alignment explanation
Indices: 2888163--2888259 Score: 63
Period size: 18 Copynumber: 4.9 Consensus size: 19
2888153 TAAAAGATAT
*
2888163 ATATATATAAGATTTATTAA
1 ATATATATAAGATATA-TAA
* * *
2888183 ATATATATATGAAAATAAAAA
1 ATATATATAAG-ATAT-ATAA
*
2888204 ATGTGTATATAAAGATATATAA
1 A--TATATAT-AAGATATATAA
*
2888226 ATA-ATATAAGGTATA-AA
1 ATATATATAAGATATATAA
*
2888243 ATATATATAATATATAT
1 ATATATATAAGATATAT
2888260 TAGAAAAGTA
Statistics
Matches: 58, Mismatches: 12, Indels: 15
0.68 0.14 0.18
Matches are distributed among these distances:
17 5 0.09
18 17 0.29
19 4 0.07
20 11 0.19
21 5 0.09
22 5 0.09
23 9 0.16
24 2 0.03
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (19 bp):
ATATATATAAGATATATAA
Found at i:2890744 original size:6 final size:6
Alignment explanation
Indices: 2890728--2890787 Score: 93
Period size: 6 Copynumber: 9.7 Consensus size: 6
2890718 GCCCCTCCAT
*
2890728 TTTTCA TTTTTCA TTTTCA TTTTTCA TTTTCA TTTTCA TTTTCA TTTTTA
1 TTTTCA -TTTTCA TTTTCA -TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
2890778 TTTTCA TTTT
1 TTTTCA TTTT
2890788 TTTGACTCAA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
6 38 0.76
7 12 0.24
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTCA
Found at i:2890789 original size:13 final size:13
Alignment explanation
Indices: 2890728--2890788 Score: 108
Period size: 12 Copynumber: 4.8 Consensus size: 13
2890718 GCCCCTCCAT
2890728 TTTTCATTTTTCA
1 TTTTCATTTTTCA
2890741 TTTTCATTTTTCA
1 TTTTCATTTTTCA
2890754 TTTTCA-TTTTCA
1 TTTTCATTTTTCA
2890766 TTTTCATTTTT-A
1 TTTTCATTTTTCA
2890778 TTTTCATTTTT
1 TTTTCATTTTT
2890789 TTGACTCAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
12 24 0.51
13 23 0.49
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:2891618 original size:12 final size:12
Alignment explanation
Indices: 2891597--2891630 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2891587 ATTTTTCTTC
*
2891597 TTTTTCTTTTAT
1 TTTTTCTTTTAA
*
2891609 TTTTTATTTTAA
1 TTTTTCTTTTAA
2891621 TTTTTCTTTT
1 TTTTTCTTTT
2891631 TCTTTTTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTCTTTTAA
Found at i:2895589 original size:12 final size:12
Alignment explanation
Indices: 2895574--2895598 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2895564 TGATGAAAAC
2895574 ATAAATAAAGAA
1 ATAAATAAAGAA
2895586 ATAAATAAAGAA
1 ATAAATAAAGAA
2895598 A
1 A
2895599 GGAATAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
ATAAATAAAGAA
Found at i:2895816 original size:3 final size:3
Alignment explanation
Indices: 2895810--2895916 Score: 67
Period size: 3 Copynumber: 34.7 Consensus size: 3
2895800 CAACAACAAC
* * *
2895810 AAT AAT AAT AAT AAT AAT AAT AAC AAC AAT -AT AAT AAT AAT ACT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * *
2895858 AAT AAGGT AAT AAT AGT GCAAT -AT AAT AGT ATT AGT AAT ATT AA- AAT
1 AAT AA--T AAT AAT AAT --AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2895905 AAAT AAT AAT AA
1 -AAT AAT AAT AA
2895917 AAAAACCTAA
Statistics
Matches: 83, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
2 6 0.07
3 67 0.81
4 5 0.06
5 5 0.06
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2895869 original size:29 final size:29
Alignment explanation
Indices: 2895801--2895862 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
2895791 CAACAACAAC
*
2895801 AACAACAACAATAATAATAATAATAATAAT
1 AACAACAA-TATAATAATAATAATAATAAT
*
2895831 AACAACAATATAATAATAATACTAAATAAT
1 AACAACAATATAATAATAATAAT-AATAAT
2895861 AA
1 AA
2895863 GGTAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (29 bp):
AACAACAATATAATAATAATAATAATAAT
Found at i:2897131 original size:8 final size:8
Alignment explanation
Indices: 2897118--2897158 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
2897108 TATTTTATGC
2897118 ATTTTTAT
1 ATTTTTAT
2897126 ATTTTTAT
1 ATTTTTAT
*
2897134 ATTTTTGT
1 ATTTTTAT
2897142 A--TTTAT
1 ATTTTTAT
2897148 ATTTTTA-
1 ATTTTTAT
2897155 ATTT
1 ATTT
2897159 AATTCAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
6 5 0.17
7 4 0.14
8 20 0.69
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
ATTTTTAT
Found at i:2897170 original size:17 final size:17
Alignment explanation
Indices: 2897148--2897181 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2897138 TTGTATTTAT
2897148 ATTTTTAATTTAATTCA
1 ATTTTTAATTTAATTCA
* *
2897165 ATTTTTATTTTATTTCA
1 ATTTTTAATTTAATTCA
2897182 CTTTAAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTAATTTAATTCA
Found at i:2897334 original size:19 final size:19
Alignment explanation
Indices: 2897312--2897372 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
2897302 AAAAATATTC
2897312 AAAAAAATTCGTGTTTTCA
1 AAAAAAATTCGTGTTTTCA
2897331 AAAAAAATTCCG-GTGTTTC-
1 AAAAAAATT-CGTGT-TTTCA
** *
2897350 AAAAATTTTCATGTTTTCA
1 AAAAAAATTCGTGTTTTCA
2897369 AAAA
1 AAAA
2897373 TTCCAGTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 5 0.14
19 24 0.69
20 6 0.17
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (19 bp):
AAAAAAATTCGTGTTTTCA
Found at i:2897335 original size:20 final size:20
Alignment explanation
Indices: 2897312--2897354 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
2897302 AAAAATATTC
2897312 AAAAAAATT-C-GTGTTTTCA
1 AAAAAAATTCCGGTG-TTTCA
2897331 AAAAAAATTCCGGTGTTTCA
1 AAAAAAATTCCGGTGTTTCA
2897351 AAAA
1 AAAA
2897355 TTTTCATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.41
20 10 0.45
21 3 0.14
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (20 bp):
AAAAAAATTCCGGTGTTTCA
Found at i:2897382 original size:35 final size:36
Alignment explanation
Indices: 2897333--2897407 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
2897323 TGTTTTCAAA
* *
2897333 AAAAATTCCGGTG-TTTC-AAAAATTTTCATGTTTTC
1 AAAAATTCCAGTGTTTTCAAAAAATTTCCAT-TTTTC
2897368 AAAAATTCCAGTGTTTTCAAAAAATTTCCATTTTTC
1 AAAAATTCCAGTGTTTTCAAAAAATTTCCATTTTTC
2897404 AAAA
1 AAAA
2897408 TTTTTATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 12 0.33
36 13 0.36
37 11 0.31
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (36 bp):
AAAAATTCCAGTGTTTTCAAAAAATTTCCATTTTTC
Found at i:2897390 original size:19 final size:19
Alignment explanation
Indices: 2897313--2897407 Score: 87
Period size: 18 Copynumber: 5.2 Consensus size: 19
2897303 AAAATATTCA
2897313 AAAAAATT-C-GTGTTTTC
1 AAAAAATTCCAGTGTTTTC
*
2897330 AAAAAAAATTCCGGTG-TTTC
1 --AAAAAATTCCAGTGTTTTC
* *
2897350 AAAAATTTTCA-TGTTTTC
1 AAAAAATTCCAGTGTTTTC
2897368 -AAAAATTCCAGTGTTTTC
1 AAAAAATTCCAGTGTTTTC
2897386 AAAAAATTTCCA-T-TTTTC
1 AAAAAA-TTCCAGTGTTTTC
2897404 AAAA
1 AAAA
2897408 TTTTTATTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
17 10 0.15
18 28 0.43
19 14 0.22
20 10 0.15
21 3 0.05
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (19 bp):
AAAAAATTCCAGTGTTTTC
Found at i:2898986 original size:3 final size:3
Alignment explanation
Indices: 2898978--2899016 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
2898968 CTTTAAAACA
2898978 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2899017 TCAAGTTTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2918222 original size:25 final size:25
Alignment explanation
Indices: 2918194--2918241 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
2918184 AAAAGGAATC
2918194 TTTATGTTTGT-TTAATAATTATTTT
1 TTTA-GTTTGTCTTAATAATTATTTT
* *
2918219 TTTAGTTTTTCTTAATTATTATT
1 TTTAGTTTGTCTTAATAATTATT
2918242 ATTCTTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (25 bp):
TTTAGTTTGTCTTAATAATTATTTT
Found at i:2921558 original size:130 final size:131
Alignment explanation
Indices: 2921298--2921567 Score: 391
Period size: 130 Copynumber: 2.1 Consensus size: 131
2921288 TCCATGAAAC
* * *
2921298 TAAAAAATAGATGTTGTAATGAACTTAAATTTAACAAATAATTAGATCTAAATTTTAATATCTGA
1 TAAAAAATAGACGTTGTAATGAACTTAAAATTAACAAATAATTAGATCTAAATTTTAAAATCTGA
* * * **
2921363 AAAAATAAAGGGATTAGATTTCAAATTTATGAAAAAATACCGAAACTTATTGCATATCTTAATCA
66 AAAAATAAAGGGACTAAATTTCAAATTTATAAAAAAATACAAAAACTTATTGCATATCTTAATCA
2921428 T
131 T
* * *
2921429 TAAAAAATAGACGTTGTAATGAACTTAAAATTAACAAATAATTGGATCTGAATTTTAAAAT-TTA
1 TAAAAAATAGACGTTGTAATGAACTTAAAATTAACAAATAATTAGATCTAAATTTTAAAATCTGA
* *
2921493 AAAAATAAAGGGACTAAATTTTAAATTTATAAAAAAATACAAAAACTTA-TGACATTTCTTAATC
66 AAAAATAAAGGGACTAAATTTCAAATTTATAAAAAAATACAAAAACTTATTG-CATATCTTAATC
2921557 AT
130 AT
*
2921559 TAAATAATA
1 TAAAAAATA
2921568 ATTGAAACTA
Statistics
Matches: 124, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
129 2 0.02
130 66 0.53
131 56 0.45
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.34
Consensus pattern (131 bp):
TAAAAAATAGACGTTGTAATGAACTTAAAATTAACAAATAATTAGATCTAAATTTTAAAATCTGA
AAAAATAAAGGGACTAAATTTCAAATTTATAAAAAAATACAAAAACTTATTGCATATCTTAATCA
T
Found at i:2922553 original size:4 final size:4
Alignment explanation
Indices: 2922544--2922586 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
2922534 TGATGTTATG
2922544 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
2922587 GAGAAAACAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:2925777 original size:2 final size:2
Alignment explanation
Indices: 2925770--2925803 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2925760 CATAAAGTGG
2925770 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
2925804 TATATACGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2926155 original size:16 final size:17
Alignment explanation
Indices: 2926134--2926169 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2926124 TTATATAAAT
*
2926134 TTTGACAT-ATTATTTA
1 TTTGACATAATTATATA
2926150 TTTGACATAATTATATA
1 TTTGACATAATTATATA
2926167 TTT
1 TTT
2926170 TTATTATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTGACATAATTATATA
Found at i:2926647 original size:31 final size:31
Alignment explanation
Indices: 2926593--2926653 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
2926583 AAATGATCAC
* * *
2926593 TGAATTATTCGAAAGTTTTCATTTATGTCAT
1 TGAACTATTCGAAAGTTTCCATTTAAGTCAT
2926624 TGAACTATTC-AAATGTTTCCATTTAAGTCA
1 TGAACTATTCGAAA-GTTTCCATTTAAGTCA
2926654 CTGATTGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (31 bp):
TGAACTATTCGAAAGTTTCCATTTAAGTCAT
Found at i:2929076 original size:24 final size:22
Alignment explanation
Indices: 2929026--2929076 Score: 52
Period size: 24 Copynumber: 2.2 Consensus size: 22
2929016 GCAGAAAACT
2929026 AATA-CTAGAATTTAACCTAAA
1 AATATCTAGAATTTAACCTAAA
2929047 ATATATCTA-AATTTGAACCCTAATA
1 A-ATATCTAGAATTT-AA-CCTAA-A
2929072 AATAT
1 AATAT
2929077 GAAAATAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
21 1 0.04
22 8 0.32
23 5 0.20
24 9 0.36
25 2 0.08
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (22 bp):
AATATCTAGAATTTAACCTAAA
Found at i:2936891 original size:40 final size:40
Alignment explanation
Indices: 2936846--2936925 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
2936836 ATTTTTAAAA
*
2936846 TTCATAATATTT-TTTCTTGTAGGTAACTGTCGATAAGATT
1 TTCATAATATTTCTTT-TTGTAGGTAACTATCGATAAGATT
*
2936886 TTCATAATATTTCTTTTTGTAGGTAATTATCGATAAGATT
1 TTCATAATATTTCTTTTTGTAGGTAACTATCGATAAGATT
2936926 ACAAATTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 34 0.92
41 3 0.08
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.49
Consensus pattern (40 bp):
TTCATAATATTTCTTTTTGTAGGTAACTATCGATAAGATT
Found at i:2938194 original size:20 final size:21
Alignment explanation
Indices: 2938158--2938207 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
2938148 TTTTTTTATT
2938158 TTTTTAA-ATTTTAATATA-A
1 TTTTTAATATTTTAATATATA
*
2938177 TATTTTAATATTTT-ATATTTA
1 T-TTTTAATATTTTAATATATA
2938198 TTTTTAATAT
1 TTTTTAATAT
2938208 GATTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 19 0.70
21 7 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTAATATTTTAATATATA
Found at i:2938796 original size:21 final size:20
Alignment explanation
Indices: 2938750--2938799 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
2938740 TCCGTTTTTC
*
2938750 TATAATTGACATTTTAACAA
1 TATAATTGTCATTTTAACAA
* **
2938770 TTTAATTGTCATATTTATTAA
1 TATAATTGTCAT-TTTAACAA
2938791 TATAATTGT
1 TATAATTGT
2938800 ATTCGTTATG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (20 bp):
TATAATTGTCATTTTAACAA
Found at i:2939296 original size:23 final size:22
Alignment explanation
Indices: 2939253--2939298 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
2939243 TAATTTTACC
*
2939253 TAACTTTCAAAATTTGCAAGAG
1 TAACTTTCAAAATTTGAAAGAG
2939275 TAACTTTCGAAAATGTT-AAAGAG
1 TAACTTTC-AAAAT-TTGAAAGAG
2939298 T
1 T
2939299 GATAGTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 11 0.52
24 2 0.10
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (22 bp):
TAACTTTCAAAATTTGAAAGAG
Found at i:2940050 original size:67 final size:69
Alignment explanation
Indices: 2939950--2940089 Score: 214
Period size: 71 Copynumber: 2.0 Consensus size: 69
2939940 TATTTTATTT
*
2939950 TATCTTTTCATTGTTTAATTGAGTTTA-TTT-TATATCTA-TAATTTTATATTTTACATTGTTTT
1 TATCTTTTCATTATTTAATTGAGTTTATTTTATATATCTACTAATTTTATATTTTACATTGTTTT
2940012 TACGA
66 TAC-A
* *
2940017 TATCTTTTTATTATTTAATTGAGTTTATTTTATATATGTACGTAATTTTATATTTTACATTGTTT
1 TATCTTTTCATTATTTAATTGAGTTTATTTTATATATCTAC-TAATTTTATATTTTACATTGTTT
2940082 TTACA
65 TTACA
2940087 TAT
1 TAT
2940090 ATTAAAAATA
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
67 25 0.38
68 3 0.05
69 7 0.11
70 4 0.06
71 27 0.41
ACGTcount: A:0.26, C:0.06, G:0.07, T:0.60
Consensus pattern (69 bp):
TATCTTTTCATTATTTAATTGAGTTTATTTTATATATCTACTAATTTTATATTTTACATTGTTTT
TACA
Found at i:2940463 original size:16 final size:16
Alignment explanation
Indices: 2940432--2940468 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
2940422 ATGTGAATAA
2940432 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
2940448 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
2940464 TATTA
1 TATTA
2940469 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:2940492 original size:18 final size:18
Alignment explanation
Indices: 2940454--2940489 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2940444 TTATTATTTT
*
2940454 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
2940472 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
2940490 TAATGTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:2940505 original size:24 final size:24
Alignment explanation
Indices: 2940478--2940542 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
2940468 AAAATAAAAT
2940478 TTAAATATTAAATAATGTATTATA
1 TTAAATATTAAATAATGTATTATA
*
2940502 TTAATTATATT-AATAATTTATTATA
1 TTAA--ATATTAAATAATGTATTATA
*
2940527 TGACAATA-TAAATAAT
1 TTA-AATATTAAATAAT
2940543 TAAATATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
23 1 0.03
24 13 0.37
25 15 0.43
26 6 0.17
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (24 bp):
TTAAATATTAAATAATGTATTATA
Found at i:2940574 original size:38 final size:40
Alignment explanation
Indices: 2940531--2940617 Score: 94
Period size: 38 Copynumber: 2.3 Consensus size: 40
2940521 ATTATATGAC
2940531 AATATAAATAATTAAATATGT-AT-TTT-AATATTATTAAA
1 AATATAAATAATTAAATAT-TAATATTTAAATATTATTAAA
** *
2940569 AATAT-AAT-ATTTTATATTAATATTTAAATATTTTTAAA
1 AATATAAATAATTAAATATTAATATTTAAATATTATTAAA
*
2940607 AATAAAAATAA
1 AATATAAATAA
2940618 AATTTATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
35 1 0.03
36 9 0.22
37 6 0.15
38 20 0.50
39 3 0.08
40 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (40 bp):
AATATAAATAATTAAATATTAATATTTAAATATTATTAAA
Found at i:2947376 original size:30 final size:31
Alignment explanation
Indices: 2947342--2947410 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
2947332 TTACCCAAGA
* **
2947342 GTAAATACT-AAAAAATTGAGGGGTTAA-AGT
1 GTAAATA-TGAAAAAATTGAAGGACTAATAGT
*
2947372 GTAAATATGAAAAAGTTGAAGGACTAATAGT
1 GTAAATATGAAAAAATTGAAGGACTAATAGT
2947403 GTAAATAT
1 GTAAATAT
2947411 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 1 0.03
30 21 0.64
31 11 0.33
ACGTcount: A:0.48, C:0.03, G:0.22, T:0.28
Consensus pattern (31 bp):
GTAAATATGAAAAAATTGAAGGACTAATAGT
Found at i:2950799 original size:14 final size:14
Alignment explanation
Indices: 2950780--2950810 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2950770 ATCCAAACAA
2950780 TAACAACAAAATAG
1 TAACAACAAAATAG
*
2950794 TAACAACATAATAG
1 TAACAACAAAATAG
2950808 TAA
1 TAA
2950811 AATGACAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:2952581 original size:30 final size:30
Alignment explanation
Indices: 2952545--2952636 Score: 184
Period size: 30 Copynumber: 3.1 Consensus size: 30
2952535 TAATAAGTGA
2952545 TTACCAATTTAGGGTCTTATTAAATGGAAC
1 TTACCAATTTAGGGTCTTATTAAATGGAAC
2952575 TTACCAATTTAGGGTCTTATTAAATGGAAC
1 TTACCAATTTAGGGTCTTATTAAATGGAAC
2952605 TTACCAATTTAGGGTCTTATTAAATGGAAC
1 TTACCAATTTAGGGTCTTATTAAATGGAAC
2952635 TT
1 TT
2952637 GATCTTGTCA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (30 bp):
TTACCAATTTAGGGTCTTATTAAATGGAAC
Found at i:2960102 original size:15 final size:15
Alignment explanation
Indices: 2960082--2960111 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2960072 GGGACAAAAT
2960082 CACAAATTTTGTCAA
1 CACAAATTTTGTCAA
2960097 CACAAATTTTGTCAA
1 CACAAATTTTGTCAA
2960112 AGTACAGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (15 bp):
CACAAATTTTGTCAA
Found at i:2966422 original size:30 final size:30
Alignment explanation
Indices: 2966350--2966422 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
2966340 AAACCTTTTT
* * *
2966350 ACTTTTCCCTCAAAACTTTTACTCCTTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCCTCCC
*
2966380 ACTTTTCCCCCAAAACTTTTACTCCCCTCCC
1 ACTTTCCCCCCAAAACTTTTACT-CCCTCCC
2966411 -C-TTCCCTCCCAA
1 ACTTTCCC-CCCAA
2966423 CCCCCCAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 4 0.11
30 28 0.74
31 6 0.16
ACGTcount: A:0.19, C:0.47, G:0.00, T:0.34
Consensus pattern (30 bp):
ACTTTCCCCCCAAAACTTTTACTCCCTCCC
Found at i:2971638 original size:15 final size:15
Alignment explanation
Indices: 2971607--2971657 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
2971597 TTATTTTTAA
* *
2971607 ATTTTAATTATTTTT
1 ATTTTAATAATTATT
2971622 ATTTTAA-AATTGATT
1 ATTTTAATAATT-ATT
2971637 ATTTTTAATAATTATT
1 A-TTTTAATAATTATT
2971653 ATTTT
1 ATTTT
2971658 TAACTCACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 3 0.10
15 14 0.45
16 10 0.32
17 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
ATTTTAATAATTATT
Found at i:2971639 original size:21 final size:23
Alignment explanation
Indices: 2971594--2971643 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
2971584 AAAAAAGTTG
*
2971594 TTTTTATTTTTAAATTTTAATTA
1 TTTTTATTTTTAAATATTAATTA
*
2971617 TTTTTA-TTTTAAA-ATTGATTA
1 TTTTTATTTTTAAATATTAATTA
2971638 TTTTTA
1 TTTTTA
2971644 ATAATTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 12 0.48
22 7 0.28
23 6 0.24
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTTTATTTTTAAATATTAATTA
Found at i:2971644 original size:16 final size:16
Alignment explanation
Indices: 2971608--2971660 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
2971598 TATTTTTAAA
* *
2971608 TTTTAATTATTTTTA-
1 TTTTAATAATTATTAT
2971623 TTTTAA-AATTGATTAT
1 TTTTAATAATT-ATTAT
2971639 TTTTAATAATTATTAT
1 TTTTAATAATTATTAT
2971655 TTTTAA
1 TTTTAA
2971661 CTCACATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 3 0.09
15 9 0.27
16 17 0.52
17 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTAATAATTATTAT
Found at i:2977840 original size:5 final size:5
Alignment explanation
Indices: 2977830--2977856 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2977820 TCATATGTCT
2977830 ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA AT
2977857 TACAACACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:2977900 original size:17 final size:19
Alignment explanation
Indices: 2977865--2977901 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
2977855 ATTACAACAC
2977865 TATAATATTTAATACAAAT
1 TATAATATTTAATACAAAT
2977884 TATAAT-TTTAATA-AAAT
1 TATAATATTTAATACAAAT
2977901 T
1 T
2977902 TACTTTACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 7 0.39
19 6 0.33
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TATAATATTTAATACAAAT
Found at i:2979188 original size:83 final size:84
Alignment explanation
Indices: 2979045--2979214 Score: 270
Period size: 83 Copynumber: 2.0 Consensus size: 84
2979035 CCACGTATAA
* * *
2979045 GAAAGAAGAAGAGGGATAGGGGGGGGGGAGAAAGACAAGTGGCATAGGTTTAGTGGAATTAGGTA
1 GAAAGAAGAAGAGGGATA-GAGGGGAGGAGAAAGACAAGTGGCATAGGTTTAGTGAAATTAGGTA
*
2979110 GTTGTTATCGTTAAAGTGAT
65 GCTGTTATCGTTAAAGTGAT
* *
2979130 GAAAGAAGAAGAGGGATA-AGGGGAGGAGAAAGGCAAGTGGCATGGGTTTAGTGAAATTAGGTAG
1 GAAAGAAGAAGAGGGATAGAGGGGAGGAGAAAGACAAGTGGCATAGGTTTAGTGAAATTAGGTAG
2979194 CTGTTATCGTTAAAGTGAT
66 CTGTTATCGTTAAAGTGAT
2979213 GA
1 GA
2979215 TGTGAAATAT
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
83 61 0.77
85 18 0.23
ACGTcount: A:0.35, C:0.04, G:0.39, T:0.22
Consensus pattern (84 bp):
GAAAGAAGAAGAGGGATAGAGGGGAGGAGAAAGACAAGTGGCATAGGTTTAGTGAAATTAGGTAG
CTGTTATCGTTAAAGTGAT
Found at i:2981091 original size:23 final size:23
Alignment explanation
Indices: 2981052--2981102 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
2981042 GGATATAGTT
* *
2981052 GCAATGCATTTTGGCACTTTGAA
1 GCAATGCATCTTGGCACTTCGAA
*
2981075 GCAATGCACTCTT-GCACTTCGAT
1 GCAATGCA-TCTTGGCACTTCGAA
2981098 GCAAT
1 GCAAT
2981103 TAATTCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (23 bp):
GCAATGCATCTTGGCACTTCGAA
Found at i:2992481 original size:26 final size:26
Alignment explanation
Indices: 2992426--2992487 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
2992416 AATACAAGTG
2992426 AAAATGATT-ATATAATAAATTTATT
1 AAAATGATTAATATAATAAATTTATT
*
2992451 AAAATAATTAATATAA-AAATTTGATT
1 AAAATGATTAATATAATAAATTT-ATT
*
2992477 GAAATGATTAA
1 AAAATGATTAA
2992488 GTTGAAAGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.44
26 18 0.56
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (26 bp):
AAAATGATTAATATAATAAATTTATT
Found at i:2994000 original size:6 final size:6
Alignment explanation
Indices: 2993989--2994023 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
2993979 CACCCTCTCT
*
2993989 CGAAGA CGAAGA -AAAGA CGAAGA CGAAGA CGAAGA
1 CGAAGA CGAAGA CGAAGA CGAAGA CGAAGA CGAAGA
2994024 GCCCTTTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.54, C:0.14, G:0.31, T:0.00
Consensus pattern (6 bp):
CGAAGA
Found at i:3008636 original size:17 final size:17
Alignment explanation
Indices: 3008614--3008653 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
3008604 AATAATATAG
3008614 TAATAATTAAAAATAA-A
1 TAATAA-TAAAAATAACA
*
3008631 TAATAATAATAATAACA
1 TAATAATAAAAATAACA
3008648 TAATAA
1 TAATAA
3008654 AAATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
TAATAATAAAAATAACA
Found at i:3008658 original size:17 final size:16
Alignment explanation
Indices: 3008625--3008659 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
3008615 AATAATTAAA
*
3008625 AATAAATAATAATAAT
1 AATAAATAATAAAAAT
3008641 AATAACATAATAAAAAT
1 AATAA-ATAATAAAAAT
3008658 AA
1 AA
3008660 AAAAACAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AATAAATAATAAAAAT
Found at i:3013848 original size:28 final size:28
Alignment explanation
Indices: 3013791--3013850 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
3013781 GATTTCCCGG
*
3013791 AAAATGGACCATTCCGATAAATAATCAA
1 AAAATGGACCATTCCGATAAATAATAAA
* * *
3013819 AAAATCGGCCCATTTCGATAAAT-TTAAA
1 AAAAT-GGACCATTCCGATAAATAATAAA
3013847 AAAA
1 AAAA
3013851 AAAGGCTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.23
Consensus pattern (28 bp):
AAAATGGACCATTCCGATAAATAATAAA
Found at i:3021131 original size:25 final size:25
Alignment explanation
Indices: 3021103--3021174 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
3021093 AAAAAGTTTC
*
3021103 AAATAAACAATATATAAAAAACTTA
1 AAATAAATAATATATAAAAAACTTA
* **
3021128 AAATGAATAATA-ATAAAACAGTTTA
1 AAATAAATAATATATAAAA-AACTTA
3021153 AAATAAATAATATATATAAAAA
1 AAATAAATAATATATA-AAAAA
3021175 TAACATATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 6 0.16
25 25 0.66
26 4 0.11
27 3 0.08
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (25 bp):
AAATAAATAATATATAAAAAACTTA
Found at i:3021175 original size:90 final size:91
Alignment explanation
Indices: 3021081--3021334 Score: 250
Period size: 90 Copynumber: 2.7 Consensus size: 91
3021071 AGAACAATTC
3021081 AAAATAAATA-AGAAAAAGTTTCAAATAAACAATATATAAAAAACTTAAAATGAATAATAATAAA
1 AAAATAAATATAGAAAAAGTTTCAAATAAACAATATATAAAAAACTTAAAATGAATAATAATAAA
3021145 ACAGTTTAAAATAAATAATATATATA
66 ACAGTTTAAAATAAATAATATATATA
* *** * *
3021171 AAAATAACATATA-AAACA-TTTTTTA-AAACAATAATGTATAAAAATTTAAAA-G-ATAATATA
1 AAAATAA-ATATAGAAAAAGTTTCAAATAAACAAT-ATATA-AAAAACTTAAAATGAATAATA-A
* *
3021231 TATAATAGTTTAAAATAAATAATATATATA
62 TAAAACAGTTTAAAATAAATAATATATATA
* * *
3021261 ATTTAAATAAATAATATGTAAAACAGTTTGAAATAAATAATATATGAAAGAAACTTAAAATAAAT
1 A---AAATAAAT-ATA-G-AAAA-AGTTTCAAATAAACAATATAT-AAA-AAACTTAAAATGAAT
3021326 AATAATAAA
57 AATAATAAA
3021335 GAGTTTTCGT
Statistics
Matches: 128, Mismatches: 17, Indels: 28
0.74 0.10 0.16
Matches are distributed among these distances:
89 13 0.10
90 46 0.36
91 18 0.14
92 3 0.02
93 9 0.07
96 3 0.02
97 1 0.01
98 9 0.07
99 16 0.12
100 4 0.03
101 6 0.05
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (91 bp):
AAAATAAATATAGAAAAAGTTTCAAATAAACAATATATAAAAAACTTAAAATGAATAATAATAAA
ACAGTTTAAAATAAATAATATATATA
Found at i:3021259 original size:26 final size:24
Alignment explanation
Indices: 3021192--3021305 Score: 103
Period size: 26 Copynumber: 4.8 Consensus size: 24
3021182 TAAAACATTT
* *
3021192 TTTAAA-ACAATAATGTATA-AAAA
1 TTTAAATA-AATAATATATATAAAG
*
3021215 TTTAAA-AGATAATATATATAATAG
1 TTTAAATAAATAATATATATAA-AG
3021239 TTTAAAATAAATAATATATAT-AA-
1 TTT-AAATAAATAATATATATAAAG
* *
3021262 TTTAAATAAATAATATGTAAAACAG
1 TTTAAATAAATAATATATATAA-AG
3021287 TTTGAAATAAATAATATAT
1 TTT-AAATAAATAATATAT
3021306 GAAAGAAACT
Statistics
Matches: 76, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
22 24 0.32
23 13 0.17
24 6 0.08
25 7 0.09
26 26 0.34
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (24 bp):
TTTAAATAAATAATATATATAAAG
Found at i:3021289 original size:48 final size:47
Alignment explanation
Indices: 3021093--3021305 Score: 165
Period size: 48 Copynumber: 4.6 Consensus size: 47
3021083 AATAAATAAG
* * * *
3021093 AAAA-AGTTTCAAATAAACAATATATAAAAAACTTAAAATGAATAATA-AT
1 AAAACAGTTTAAAATAAATAATATAT--ATAATTTAAAA--AATAATATAT
*
3021142 AAAACAGTTTAAAATAAAT-A-ATATAT-A--T-AAAAATAACATAT
1 AAAACAGTTTAAAATAAATAATATATATAATTTAAAAAATAATATAT
* * * * *
3021183 AAAACATTTTTTAAAA-CAATAATGTATAAAAATTTAAAAGATAATATAT
1 AAAACA--GTTTAAAATAAATAATATAT-ATAATTTAAAAAATAATATAT
* * *
3021232 ATAATAGTTTAAAATAAATAATATATATAATTTAAATAAATAATATGT
1 AAAACAGTTTAAAATAAATAATATATATAATTTAAA-AAATAATATAT
*
3021280 AAAACAGTTTGAAATAAATAATATAT
1 AAAACAGTTTAAAATAAATAATATAT
3021306 GAAAGAAACT
Statistics
Matches: 130, Mismatches: 21, Indels: 27
0.73 0.12 0.15
Matches are distributed among these distances:
40 6 0.05
41 8 0.06
42 6 0.05
43 9 0.07
44 3 0.02
45 2 0.02
46 2 0.02
47 16 0.12
48 46 0.35
49 20 0.15
50 12 0.09
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (47 bp):
AAAACAGTTTAAAATAAATAATATATATAATTTAAAAAATAATATAT
Found at i:3026615 original size:41 final size:39
Alignment explanation
Indices: 3026487--3026626 Score: 106
Period size: 40 Copynumber: 3.6 Consensus size: 39
3026477 ACACACTAGT
* * *
3026487 TTGATACCCAGTACCTCATCGGA-TAATTCGAAGTAATAA
1 TTGACACCCAGTGCCTCATCGAATTAA-TCGAAGTAATAA
* * * ** * *
3026526 GTTAACACTCAGTGTCTCATCGGCTAAATTGAAGT-A-AA
1 -TTGACACCCAGTGCCTCATCGAATTAATCGAAGTAATAA
*
3026564 TTGGCACCCAGTGCCTCATCGAATTAATCCGAAGTAATAGA
1 TTGACACCCAGTGCCTCATCGAATTAAT-CGAAGTAATA-A
* *
3026605 TTGACACCCAGTGTCGCATCGA
1 TTGACACCCAGTGCCTCATCGA
3026627 CTCGAAGACG
Statistics
Matches: 76, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
37 21 0.28
38 7 0.09
39 2 0.03
40 24 0.32
41 22 0.29
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (39 bp):
TTGACACCCAGTGCCTCATCGAATTAATCGAAGTAATAA
Found at i:3027064 original size:15 final size:15
Alignment explanation
Indices: 3027044--3027072 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3027034 TTCATTCTCC
3027044 TTTTCTTTCTTTTTT
1 TTTTCTTTCTTTTTT
3027059 TTTTCTTTCTTTTT
1 TTTTCTTTCTTTTT
3027073 CCCTTCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTCTTTCTTTTTT
Found at i:3054059 original size:42 final size:43
Alignment explanation
Indices: 3054007--3054099 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 43
3053997 GCTTTGGAAG
3054007 AAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTT-GTTCA
1 AAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAGTTCA
* * * *
3054049 AAAACGCCGCTAATAGTAGTGTTCTTTAGCGGCGCTTATTTCA
1 AAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAGTTCA
*
3054092 CAAACGCC
1 AAAACGCC
3054100 ACTATTTGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 34 0.76
43 11 0.24
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (43 bp):
AAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAGTTCA
Found at i:3054559 original size:21 final size:21
Alignment explanation
Indices: 3054535--3054603 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
3054525 GCTTCTATTG
3054535 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
3054556 CTGCTTCTCTTGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
3054577 CTGCTTCTCTCACTGCCA-CCT
1 CTGCTTCTCTCGCTG-CAGCCT
3054598 CTGCTT
1 CTGCTT
3054604 TAAGTTGTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 41 0.98
22 1 0.02
ACGTcount: A:0.06, C:0.41, G:0.16, T:0.38
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:3060077 original size:7 final size:7
Alignment explanation
Indices: 3060067--3060119 Score: 70
Period size: 7 Copynumber: 7.0 Consensus size: 7
3060057 TGATATATTT
3060067 TTATGTA
1 TTATGTA
3060074 TTATGTAA
1 TTATGT-A
3060082 GTTATGTAA
1 -TTATGT-A
3060091 GTTATGTA
1 -TTATGTA
3060099 TTATGTA
1 TTATGTA
3060106 TTATGTA
1 TTATGTA
3060113 TTATGTA
1 TTATGTA
3060120 AGTACTGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
7 27 0.61
8 2 0.05
9 15 0.34
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (7 bp):
TTATGTA
Found at i:3060088 original size:9 final size:9
Alignment explanation
Indices: 3060074--3060991 Score: 574
Period size: 9 Copynumber: 102.7 Consensus size: 9
3060064 TTTTTATGTA
3060074 TTATGTAAG
1 TTATGTAAG
3060083 TTATGTAAG
1 TTATGTAAG
3060092 TTATGT-A-
1 TTATGTAAG
3060099 TTATGT-A-
1 TTATGTAAG
3060106 TTATGT-A-
1 TTATGTAAG
3060113 TTATGTAAG
1 TTATGTAAG
3060122 -TACTGTAAG
1 TTA-TGTAAG
*
3060131 TAATGTAAG
1 TTATGTAAG
3060140 TTATGTAAG
1 TTATGTAAG
* *
3060149 TTATTTAAT
1 TTATGTAAG
*
3060158 TTATGCAAG
1 TTATGTAAG
3060167 TTTATGTAAG
1 -TTATGTAAG
3060177 TTATGTAAG
1 TTATGTAAG
*
3060186 TTAAT-TAAT
1 TT-ATGTAAG
*
3060195 TTATGCAAG
1 TTATGTAAG
3060204 TTTATGTAAG
1 -TTATGTAAG
3060214 TTATGTAAG
1 TTATGTAAG
*
3060223 TTACT-TAAT
1 TTA-TGTAAG
3060232 TTATGTAAG
1 TTATGTAAG
3060241 TTATGTAAG
1 TTATGTAAG
* *
3060250 TTATTTAAT
1 TTATGTAAG
3060259 TTATGTAAG
1 TTATGTAAG
3060268 TTATGTAAG
1 TTATGTAAG
* *
3060277 TTATTTAAT
1 TTATGTAAG
*
3060286 TTATGTAGG
1 TTATGTAAG
3060295 TTATGTAAG
1 TTATGTAAG
*
3060304 TTACT-TAAT
1 TTA-TGTAAG
3060313 TTATGTAAG
1 TTATGTAAG
3060322 TTATGTAAG
1 TTATGTAAG
* *
3060331 TTATTTAAT
1 TTATGTAAG
*
3060340 TTATGTAGG
1 TTATGTAAG
3060349 TTATGTAAG
1 TTATGTAAG
* *
3060358 TTATTTAAT
1 TTATGTAAG
*
3060367 TTATGCAAG
1 TTATGTAAG
3060376 TTTATGTAAG
1 -TTATGTAAG
*
3060386 TTACT-TAAT
1 TTA-TGTAAG
3060395 TTATGTAAG
1 TTATGTAAG
3060404 TTATGTAAG
1 TTATGTAAG
* *
3060413 TTATTTAAT
1 TTATGTAAG
*
3060422 TTATGTAGG
1 TTATGTAAG
*
3060431 CTATGTAAG
1 TTATGTAAG
*
3060440 TTACT-TAAT
1 TTA-TGTAAG
3060449 TTATGTAAG
1 TTATGTAAG
3060458 TTATGTAAG
1 TTATGTAAG
* *
3060467 TTATTTAAT
1 TTATGTAAG
*
3060476 TTACT-CAAG
1 TTA-TGTAAG
3060485 TTTATGTAAG
1 -TTATGTAAG
3060495 TTATGTAAG
1 TTATGTAAG
*
3060504 TTACT-TAAT
1 TTA-TGTAAG
3060513 TTATGTAAG
1 TTATGTAAG
3060522 TTATGTAAG
1 TTATGTAAG
* *
3060531 TTATTTAAT
1 TTATGTAAG
3060540 TTATGTAAG
1 TTATGTAAG
*
3060549 TTATTTAAG
1 TTATGTAAG
* *
3060558 TTATTTAAT
1 TTATGTAAG
*
3060567 TTATGTAGG
1 TTATGTAAG
3060576 TTATGTAAG
1 TTATGTAAG
*
3060585 TTACT-TAAT
1 TTA-TGTAAG
3060594 TTATGTAAG
1 TTATGTAAG
*
3060603 TTAT-TATG
1 TTATGTAAG
*
3060611 TTAT-TATG
1 TTATGTAAG
*
3060619 TTATTATATAAG
1 ---TTATGTAAG
*
3060631 TTATTTAAG
1 TTATGTAAG
*
3060640 TTAT-TATG
1 TTATGTAAG
3060648 TTAT-TATA-
1 TTATGTA-AG
* *
3060656 TAAAGT-A-
1 TTATGTAAG
*
3060663 TTATGTAAT
1 TTATGTAAG
*
3060672 TTAT-TATG
1 TTATGTAAG
3060680 TTAT-T-A-
1 TTATGTAAG
3060686 -TATGTAAG
1 TTATGTAAG
3060694 TTATGTAAG
1 TTATGTAAG
* *
3060703 TTATTTAAA
1 TTATGTAAG
3060712 TTATGTAAG
1 TTATGTAAG
*
3060721 TTATGCAAG
1 TTATGTAAG
*
3060730 CTTATATACAAG
1 -TTATGT--AAG
3060742 TTATGT-A-
1 TTATGTAAG
*
3060749 TTATAACATAAAG
1 TTAT---GT-AAG
*
3060762 TATTATGTAAT
1 --TTATGTAAG
*
3060773 TTATGT-TG
1 TTATGTAAG
3060781 TTAT-T-A-
1 TTATGTAAG
*
3060787 -TATATAAG
1 TTATGTAAG
3060795 TTATGT-AG
1 TTATGTAAG
3060803 ATTATGTAAG
1 -TTATGTAAG
*
3060813 TTAAT-TAAT
1 TT-ATGTAAG
*
3060822 TTATGCAAG
1 TTATGTAAG
*
3060831 TTTATATAAG
1 -TTATGTAAG
3060841 TTATGTAAG
1 TTATGTAAG
* *
3060850 TTATTTAAT
1 TTATGTAAG
*
3060859 TTATGTGAG
1 TTATGTAAG
* *
3060868 TTTCTATATATG
1 --T-TATGTAAG
*
3060880 TT-TATATA-
1 TTATGTA-AG
3060888 TTATGTAAG
1 TTATGTAAG
*
3060897 TTATGTACG
1 TTATGTAAG
3060906 TGTA--TAAG
1 T-TATGTAAG
3060914 TTATGT-A-
1 TTATGTAAG
*
3060921 TTAAGTAAG
1 TTATGTAAG
*
3060930 CTATGTAAG
1 TTATGTAAG
*
3060939 TTGTGT-A-
1 TTATGTAAG
3060946 TTATGTAAG
1 TTATGTAAG
*
3060955 TTATGTTATG
1 TTATG-TAAG
3060965 TTATTACGTAAG
1 TTA-T--GTAAG
*
3060977 TTATGCAAG
1 TTATGTAAG
3060986 TTATGT
1 TTATGT
3060992 TTATAACGAG
Statistics
Matches: 712, Mismatches: 124, Indels: 146
0.73 0.13 0.15
Matches are distributed among these distances:
5 6 0.01
6 2 0.00
7 44 0.06
8 66 0.09
9 491 0.69
10 65 0.09
11 14 0.02
12 19 0.03
13 1 0.00
15 4 0.01
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:3060149 original size:27 final size:27
Alignment explanation
Indices: 3060081--3060734 Score: 651
Period size: 27 Copynumber: 23.6 Consensus size: 27
3060071 GTATTATGTA
*
3060081 AGTTATGTAAGTTATGT-A-TTATGT-
1 AGTTATGTAAGTTATTTAATTTATGTA
* *
3060105 A-TTATGT-A-TTATGTAA-GTACTGTA
1 AGTTATGTAAGTTATTTAATTTA-TGTA
* * * *
3060129 AGTAATGTAAGTTATGTAAGTTATTTA
1 AGTTATGTAAGTTATTTAATTTATGTA
* * * *
3060156 ATTTATGCAAGTTTATGTAAGTTATGTA
1 AGTTATGTAAG-TTATTTAATTTATGTA
* **
3060184 AGTTAAT-TAATTTATGCAAGTTTATGTA
1 AGTT-ATGTAAGTTATTTAA-TTTATGTA
*
3060212 AGTTATGTAAGTTACTTAATTTATGTA
1 AGTTATGTAAGTTATTTAATTTATGTA
3060239 AGTTATGTAAGTTATTTAATTTATGTA
1 AGTTATGTAAGTTATTTAATTTATGTA
3060266 AGTTATGTAAGTTATTTAATTTATGTA
1 AGTTATGTAAGTTATTTAATTTATGTA
* *
3060293 GGTTATGTAAGTTACTTAATTTATGTA
1 AGTTATGTAAGTTATTTAATTTATGTA
3060320 AGTTATGTAAGTTATTTAATTTATGTA
1 AGTTATGTAAGTTATTTAATTTATGTA
* *
3060347 GGTTATGTAAGTTATTTAATTTATGCA
1 AGTTATGTAAGTTATTTAATTTATGTA
*
3060374 AGTTTATGTAAGTTACTTAATTTATGTA
1 AG-TTATGTAAGTTATTTAATTTATGTA
3060402 AGTTATGTAAGTTATTTAATTTATGTA
1 AGTTATGTAAGTTATTTAATTTATGTA
* * *
3060429 GGCTATGTAAGTTACTTAATTTATGTA
1 AGTTATGTAAGTTATTTAATTTATGTA
3060456 AGTTATGTAAGTTATTTAATTTACTCAAGTTTA
1 AGTTATGTAAGTTATTTAATTTA-T---G--TA
*
3060489 TGTAAGTTATGTAAGTTACTTAATTTATGTA
1 ----AGTTATGTAAGTTATTTAATTTATGTA
3060520 AGTTATGTAAGTTATTTAATTTATGTA
1 AGTTATGTAAGTTATTTAATTTATGTA
*
3060547 AGTTATTTAAGTTATTTAATTTATGTA
1 AGTTATGTAAGTTATTTAATTTATGTA
* *
3060574 GGTTATGTAAGTTACTTAATTTATGTA
1 AGTTATGTAAGTTATTTAATTTATGTA
* ** *
3060601 AGTTAT-TATGTTATTATGTTATTATATA
1 AGTTATGTAAGTTATT-TAAT-TTATGTA
* ** *
3060629 AGTTATTTAAGTTATTATGTTATTATATAA
1 AGTTATGTAAGTTATT-TAAT-TTATGT-A
* *
3060659 AGTATTATGTAATTTATTATGTTATTATATGTA
1 AG--TTATGTAAGTTA-T-T-TAATT-TATGTA
*
3060692 AGTTATGTAAGTTATTTAAATTATGTA
1 AGTTATGTAAGTTATTTAATTTATGTA
*
3060719 AGTTATGCAAGCTTAT
1 AGTTATGTAAG-TTAT
3060735 ATACAAGTTA
Statistics
Matches: 541, Mismatches: 57, Indels: 60
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.01
22 4 0.01
23 9 0.02
24 2 0.00
25 5 0.01
26 8 0.01
27 332 0.61
28 86 0.16
29 23 0.04
30 4 0.01
31 14 0.03
32 10 0.02
33 8 0.01
34 7 0.01
36 1 0.00
37 22 0.04
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (27 bp):
AGTTATGTAAGTTATTTAATTTATGTA
Found at i:3060615 original size:8 final size:8
Alignment explanation
Indices: 3060602--3060654 Score: 52
Period size: 8 Copynumber: 6.0 Consensus size: 8
3060592 ATTTATGTAA
3060602 GTTATTAT
1 GTTATTAT
3060610 GTTATTAT
1 GTTATTAT
3060618 GTTATTATAT
1 GTTA-T-TAT
*
3060628 AAGTTATTTAA
1 --GTTA-TTAT
3060639 GTTATTAT
1 GTTATTAT
3060647 GTTATTAT
1 GTTATTAT
3060655 ATAAAGTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 23 0.59
9 5 0.13
10 3 0.08
11 2 0.05
12 6 0.15
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.58
Consensus pattern (8 bp):
GTTATTAT
Found at i:3060692 original size:22 final size:23
Alignment explanation
Indices: 3060610--3060707 Score: 63
Period size: 20 Copynumber: 4.7 Consensus size: 23
3060600 AAGTTATTAT
*
3060610 GTTAT-TATGTTATTATA--TAA
1 GTTATGTAAGTTATTATATGTAA
* *
3060630 GTTATTTAAGTTA-T-TATGTTA
1 GTTATGTAAGTTATTATATGTAA
*
3060651 -TTATATAAAG-TA-T-TATGTAA
1 GTTATGT-AAGTTATTATATGTAA
* *
3060671 TTTAT-TATGTTATTATATGTAA
1 GTTATGTAAGTTATTATATGTAA
3060693 GTTATGTAAGTTATT
1 GTTATGTAAGTTATT
3060708 TAAATTATGT
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
19 4 0.06
20 23 0.37
21 16 0.26
22 11 0.18
23 8 0.13
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (23 bp):
GTTATGTAAGTTATTATATGTAA
Found at i:3060945 original size:25 final size:25
Alignment explanation
Indices: 3060910--3060960 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
3060900 TGTACGTGTA
3060910 TAAGTTATGTATTAAGTAAGCTATG
1 TAAGTTATGTATTAAGTAAGCTATG
* * *
3060935 TAAGTTGTGTATTATGTAAGTTATG
1 TAAGTTATGTATTAAGTAAGCTATG
3060960 T
1 T
3060961 TATGTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (25 bp):
TAAGTTATGTATTAAGTAAGCTATG
Found at i:3061083 original size:22 final size:21
Alignment explanation
Indices: 3061037--3061088 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
3061027 ATTGGTGTAT
* * *
3061037 TAAGTTATGGAAGTTATTATG
1 TAAGTTATGCAAGTTATAATA
3061058 TAAGTTATGCAAGATTATAATA
1 TAAGTTATGCAAG-TTATAATA
3061080 TAAGTTATG
1 TAAGTTATG
3061089 TATTATGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (21 bp):
TAAGTTATGCAAGTTATAATA
Found at i:3061102 original size:8 final size:7
Alignment explanation
Indices: 3061084--3061121 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
3061074 ATAATATAAG
3061084 TTATGTA
1 TTATGTA
3061091 TTATGTTA
1 TTATG-TA
3061099 TTATGTA
1 TTATGTA
3061106 TTATGTA
1 TTATGTA
3061113 --ATGTA
1 TTATGTA
3061118 TTAT
1 TTAT
3061122 CAGATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (7 bp):
TTATGTA
Found at i:3061102 original size:27 final size:26
Alignment explanation
Indices: 3061069--3061141 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
3061059 AAGTTATGCA
*
3061069 AGATTATAATATAAGTTATGTATTATG
1 AGATTAT-ATATAAGTTATGTATTATC
** * * *
3061096 TTATTATGTATTATGTAATGTATTATC
1 AGATTATATA-TAAGTTATGTATTATC
3061123 AGATTATATATAAGTTATG
1 AGATTATATATAAGTTATG
3061142 GAAGTTATTA
Statistics
Matches: 34, Mismatches: 11, Indels: 3
0.71 0.23 0.06
Matches are distributed among these distances:
26 9 0.26
27 25 0.74
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.48
Consensus pattern (26 bp):
AGATTATATATAAGTTATGTATTATC
Found at i:3061111 original size:95 final size:95
Alignment explanation
Indices: 3061037--3061213 Score: 311
Period size: 95 Copynumber: 1.9 Consensus size: 95
3061027 ATTGGTGTAT
*
3061037 TAAGTTATGGAAGTTATTATGTAAGTTATGCAAGATTATAATATAAGTTATGTATTATGTTATTA
1 TAAGTTATGGAAGTTATTATGTAAGTTATACAAGATTAT-ATATAAGTTATGTATTATGTTATTA
3061102 TGTATTATGTAA-TGTATTATCAGATTATATA
65 TGTATTATGTAAGT-TATTATCAGATTATATA
*
3061133 TAAGTTATGGAAGTTATTATGTAAGTTATACAAGCTTATATATAAGTTATGTATTATGTTATTAT
1 TAAGTTATGGAAGTTATTATGTAAGTTATACAAGATTATATATAAGTTATGTATTATGTTATTAT
3061198 GTATTATGTAAGTTAT
66 GTATTATGTAAGTTAT
3061214 GCAAGCTTAT
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
95 40 0.51
96 38 0.49
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.46
Consensus pattern (95 bp):
TAAGTTATGGAAGTTATTATGTAAGTTATACAAGATTATATATAAGTTATGTATTATGTTATTAT
GTATTATGTAAGTTATTATCAGATTATATA
Found at i:3061158 original size:21 final size:21
Alignment explanation
Indices: 3061133--3061213 Score: 69
Period size: 21 Copynumber: 3.8 Consensus size: 21
3061123 AGATTATATA
*
3061133 TAAGTTATGGAAGTTATTATG
1 TAAGTTATGTAAGTTATTATG
** *
3061154 TAAGTTATACAAGCTTA-TATA
1 TAAGTTATGTAAG-TTATTATG
3061175 TAAGTTATGTATTATGTTATTATG
1 TAAGTTATGTA--A-GTTATTATG
3061199 T-A-TTATGTAAGTTAT
1 TAAGTTATGTAAGTTAT
3061214 GCAAGCTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
19 5 0.10
20 1 0.02
21 23 0.47
22 10 0.20
23 5 0.10
24 5 0.10
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (21 bp):
TAAGTTATGTAAGTTATTATG
Found at i:3061212 original size:52 final size:52
Alignment explanation
Indices: 3061147--3061255 Score: 175
Period size: 52 Copynumber: 2.1 Consensus size: 52
3061137 TTATGGAAGT
*
3061147 TATTATGTAAGTTATACAAGCTTATATA-TAAGTTATGTATTATGTTATTATG
1 TATTATGTAAGTTATACAAGCTTATATACCAA-TTATGTATTATGTTATTATG
* *
3061199 TATTATGTAAGTTATGCAAGCTTATATACCAATTATGTATTGTGTTATTATG
1 TATTATGTAAGTTATACAAGCTTATATACCAATTATGTATTATGTTATTATG
3061251 TATTA
1 TATTA
3061256 AGTTATATAC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
52 51 0.96
53 2 0.04
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.48
Consensus pattern (52 bp):
TATTATGTAAGTTATACAAGCTTATATACCAATTATGTATTATGTTATTATG
Found at i:3062216 original size:36 final size:36
Alignment explanation
Indices: 3062169--3062244 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
3062159 TTTATACCAA
3062169 AAATATTACTTTGCTCAGAATGTAATTTGAACTTAC
1 AAATATTACTTTGCTCAGAATGTAATTTGAACTTAC
3062205 AAATATTACTTTGCTCAGAATGTAATTTGAACTTAC
1 AAATATTACTTTGCTCAGAATGTAATTTGAACTTAC
3062241 AAAT
1 AAAT
3062245 TTTGAACAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (36 bp):
AAATATTACTTTGCTCAGAATGTAATTTGAACTTAC
Found at i:3062579 original size:52 final size:52
Alignment explanation
Indices: 3062517--3062615 Score: 189
Period size: 52 Copynumber: 1.9 Consensus size: 52
3062507 GGTTATGCAA
*
3062517 ATTATTACCTAAAAATGTTCTTACTTTCTTAACCCTAATTTGAATTTACCGT
1 ATTAATACCTAAAAATGTTCTTACTTTCTTAACCCTAATTTGAATTTACCGT
3062569 ATTAATACCTAAAAATGTTCTTACTTTCTTAACCCTAATTTGAATTT
1 ATTAATACCTAAAAATGTTCTTACTTTCTTAACCCTAATTTGAATTT
3062616 TCTTATTTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.44
Consensus pattern (52 bp):
ATTAATACCTAAAAATGTTCTTACTTTCTTAACCCTAATTTGAATTTACCGT
Found at i:3062605 original size:26 final size:26
Alignment explanation
Indices: 3062524--3062606 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 26
3062514 CAAATTATTA
3062524 CCTAAAAATGTTCTTACTTTCTTAAC
1 CCTAAAAATGTTCTTACTTTCTTAAC
** * ** * *
3062550 CCT-AATTTGAAT-TTACCGTATTAATA
1 CCTAAAAATG-TTCTTACTTTCTTAA-C
3062576 CCTAAAAATGTTCTTACTTTCTTAAC
1 CCTAAAAATGTTCTTACTTTCTTAAC
3062602 CCTAA
1 CCTAA
3062607 TTTGAATTTT
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
25 13 0.33
26 13 0.33
27 13 0.33
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.41
Consensus pattern (26 bp):
CCTAAAAATGTTCTTACTTTCTTAAC
Found at i:3064514 original size:14 final size:14
Alignment explanation
Indices: 3064497--3064543 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
3064487 TTGTAACTCT
*
3064497 TAAATCTTAAACCA
1 TAAACCTTAAACCA
*
3064511 TAAACCTTAAAGCA
1 TAAACCTTAAACCA
* *
3064525 TAACCCTTAAACCC
1 TAAACCTTAAACCA
3064539 TAAAC
1 TAAAC
3064544 TATAAAAACC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:3064534 original size:35 final size:35
Alignment explanation
Indices: 3064461--3064549 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 35
3064451 ACATAATCAC
* *** *
3064461 TAAACCCATAATCCATAAACCTTAAATTGTAACTCT
1 TAAACCC-TAAACCATAAACCTTAAAGCATAACCCT
* *
3064497 TAAATCTTAAACCATAAACCTTAAAGCATAACCCT
1 TAAACCCTAAACCATAAACCTTAAAGCATAACCCT
*
3064532 TAAACCCTAAACTATAAA
1 TAAACCCTAAACCATAAA
3064550 AACCAAACCC
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
35 38 0.88
36 5 0.12
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.27
Consensus pattern (35 bp):
TAAACCCTAAACCATAAACCTTAAAGCATAACCCT
Done.